Table Of ContentSubrata Trivedi · Abid Ali Ansari
Sankar K. Ghosh · Hasibur Rehman
Editors
DNA Barcoding
in Marine
Perspectives
Assessment and Conservation of
Biodiversity
DNA Barcoding in Marine Perspectives
Subrata Trivedi Abid Ali Ansari
(cid:129)
Sankar K. Ghosh Hasibur Rehman
(cid:129)
Editors
DNA Barcoding in Marine
Perspectives
Assessment and Conservation of Biodiversity
123
Editors
SubrataTrivedi Sankar K.Ghosh
Department ofBiology, Faculty of Science Department ofBiotechnology
University of Tabuk AssamUniversity
Tabuk Assam
SaudiArabia India
AbidAli Ansari Hasibur Rehman
Department ofBiology, Faculty of Science Department ofBiology, Faculty of Science
University of Tabuk University of Tabuk
Tabuk Tabuk
SaudiArabia SaudiArabia
ISBN978-3-319-41838-4 ISBN978-3-319-41840-7 (eBook)
DOI 10.1007/978-3-319-41840-7
LibraryofCongressControlNumber:2016947023
©SpringerInternationalPublishingSwitzerland2016
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“We would like to dedicate this book to our
parents and mentors”
Dr. Subrata Trivedi andDr. Hasibur Rehman
Preface
WhenIhearofthedestructionofaspecies,Ifeeljustasifall
theworksofsomegreatwriterhaveperished.
—TheodoreRoosevelt
Weknowthatwhenweprotectouroceanswe’reprotecting
ourfuture.
—BillClinton
The oceans cover more than 70 % of our planet’s surface area, and the massive
marine and coastal environments are blessed with diverse marine life. To meet the
demands of increasing population we are becoming more reliant on the marine
bioresources.Forexampleonlythemarinefishandinvertebratesprovidemorethan
2.6 billion people with about 20 % per capita protein consumption. To make the
marineenvironmentsustainable,theproperassessmentandconservationofmarine
biodiversity is of prime importance. In the last decade, the molecular technique of
DNAbarcodinghasbecomeaneffectivetoolintheassessmentandconservationof
biodiversity. The marine ecosystem is threatened by several activities such as
overfishing, introduction of invasive alien species, depleting mangrove and sea
grass cover, illegal trading of endangered marine species and their body parts, etc.
DNA barcoding plays a very significant role in all these aspects along its primary
role in the proper and prompt identification of species. In this book we discuss
DNA barcoding from the marine perspective.
The present book offers insights into different aspects of DNA barcoding in
relation to the marine habitat. The chapters cover diverse marine life including
marine plants such as phytoplanktons, marine algae, seagrasses, and also marine
animals as marine invertebrates including the primitive nemartines, horse shoe
crabs,fishes,etc.Sincemarinefisheryhasaverysignificantrole,aspecialemphasis
has been given to DNA barcoding of marine fishes including Antarctic fishes. The
chaptersalsoincludeaspectssuchasbioinformatics,seafoodsafetyassessmentand
authentication. Many of the chapters are based on the research projects and case
history studies conducted at specific sites and also around the globe. The chapters
vii
viii Preface
not only describe the promise of DNA barcoding but also some of its pitfalls. The
contribution made by authors from nine different countries has enriched this book.
The editors and the contributing authors think that this book will provide
important and interesting insights to DNA barcoding in the diverse and massive
marineecosystem.Tilldate,onlyafewbooksareavailableonDNAbarcodingand
we hope this book will fill the lacuna. This is the first book related to DNA
barcoding exclusively on marine organisms.
Tabuk, KSA Subrata Trivedi
Tabuk, KSA Abid Ali Ansari
Silchar, India Sankar K. Ghosh
Tabuk, KSA Hasibur Rehman
Contents
Part I Overview, Significance and Bioinformatics
DNA Barcoding in the Marine Habitat: An Overview.. .... ..... .... 3
Subrata Trivedi, Hasibur Rehman, Shalini Saggu,
Chellasamy Panneerselvam, Zahid Khorshid Abbas, Iqbal Ahmad,
Abid A. Ansari and Sankar K. Ghosh
Measurement of a Barcode’s Accuracy in Identifying Species..... .... 29
John L. Spouge
DNA Barcoding: A Tool to Assess and Conserve
Marine Biodiversity .... .... ..... .... .... .... .... .... ..... .... 43
Sudakshina Ghosh, Biswabandhu Bankura and Madhusudan Das
Safety Assessment and Authentication of Seafood
Through DNA Barcoding.... ..... .... .... .... .... .... ..... .... 63
Shalini Saggu, Hasibur Rehman, Subrata Trivedi, Al Thbiani Aziz
and Jayda G. Eldiasty
Bioinformatics Tools in Marine DNA Barcoding .. .... .... ..... .... 71
Pradosh Mahadani, Subrata Trivedi, Hasibur Rehman and Shalini Saggu
Part II DNA Barcoding of Marine Invertebrates
Morphological and COI Sequence Based Characterisation
of Marine Polychaete Species from Great Nicobar Island, India... .... 89
V. Sekar, R. Rajasekaran, C. Prasannakumar, R. Sankar, R. Sridhar
and V. Sachithanandam
Revised Phylogeny of Extant Xiphosurans (Horseshoe Crabs) .... .... 113
B. Akbar John, Hassan I. Sheikh, K. C. A. Jalal, K. Zaleha
and B. Y. Kamaruzzaman
DNA Barcoding in Marine Nematodes: Successes and Pitfalls .... .... 131
Punyasloke Bhadury
ix
x Contents
DNA Barcoding of Calanoid Copepods from the Gulf of California.... 147
Juan Ramon Beltrán-Castro and Sergio Hernández-Trujillo
DNA Barcoding of Primitive Species-Nemertine from Sundarbans
Marine Bio-resource.... .... ..... .... .... .... .... .... ..... .... 157
Bishal Dhar, Apurba Ghose, Sharbadeb Kundu, Amalesh Choudhury,
SudiptaGhorai,SubrataTrivedi,JoyobratoNathandSankarKumarGhosh
Future Perspectives of DNA Barcoding in Marine Zooplanktons
and Invertebrates .. .... .... ..... .... .... .... .... .... ..... .... 169
Farhina Pasha, Shalini Saggu and Maryam Fahad Albalawi
DNA Barcoding: Molecular Positioning of Living Fossils
(Horseshoe Crab) .. .... .... ..... .... .... .... .... .... ..... .... 181
Bishal Dhar, Apurba Ghose, Sharbadeb Kundu, Sorokhaibam Malvika,
Ningthoujam Neelima Devi, Amalesh Choudhury, Sudipta Ghorai,
Subrata Trivedi and Sankar Kumar Ghosh
Part III DNA Barcoding of Marine Fishes
Mitochondrial DNA Diversity of Wild and Hatchery Reared
Strains of Indian Lates calcarifer (Bloch) .... .... .... .... ..... .... 203
Prasanna Kumar, B. Akbar John and V. Kanagasabapathy
Barcoding Antarctic Fishes: Species Discrimination and Contribution
to Elucidate Ontogenetic Changes in Nototheniidae.... .... ..... .... 213
E. Mabragaña, S. M. Delpiani, J. J. Rosso, M. González-Castro,
M. Deli Antoni, R. Hanner and J. M. Díaz de Astarloa
Barcoding of Indian Marine Fishes: For Identification and
Conservation.. .... .... .... ..... .... .... .... .... .... ..... .... 243
V.S.Basheer,LabrechaiMogChowdhury,C.MohithaandK.K.Bineesh
DNA Barcoding Identifies Brackish Water Fishes from Nallavadu
Lagoon, Puducherry, India... ..... .... .... .... .... .... ..... .... 271
V. Sachithanandam, P. M. Mohan, N. Muruganandam, R. Sivasankar,
P. Arunkumar, T. Mageswaran and R. Sridhar
DNA Barcoding of Marine Fishes: Prospects and Challenges..... .... 285
AnnamPavan-Kumar,P.Gireesh-Babu,A.K.Jaiswar,AparnaChaudhari,
Gopal Krishna and W. S. Lakra
Part IV DNA Barcoding of Marine Plants
DNA Barcoding in Phytoplankton and Other Algae in Marine
Ecosystem: An Effective Tool for Biodiversity Assessment .. ..... .... 303
Farhina Pasha
A Search for a Single DNA Barcode for Seagrasses of the World . .... 313
Barnabas H. Daru and Kowiyou Yessoufou
Part I
Overview, Significance and Bioinformatics
